ArticleThe Plant journal : for cell and molecular biology2020
Segmental duplications are hot spots of copy number variants affecting barley gene content.
Article in The Plant journal : for cell and molecular biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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15 citing papers in PubMed, 24 citations in OpenAlex.
- Genetic dissection of root traits in barley identifies major QTLs and domestication signature.Plant cell reports · 2026Article
- A pangenome reference and population studies link structural variants with breeding traits in Gossypium hirsutum.Nature genetics · 2026Article
- DOF gene family in P. sativum (L.): comprehensive genomic identification, phylogenetic examination, evolutionary growth, and expression analysis.BMC genomics · 2025Article
- Genome-Wide Analysis of the Maize LBD Gene Family Reveals a Role forPlants (Basel, Switzerland) · 2025Article
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- A Systematic Review of the Advances and New Insights into Copy Number Variations in Plant Genomes.Plants (Basel, Switzerland) · 2025Review
- Genome-wide identification of copy number variation in diverse black pepper accessions.Planta · 2025Article
- EPAD1 Orthologs Play a Conserved Role in Pollen Exine Patterning.International journal of molecular sciences · 2024Article
- Genetic erosion in domesticated barley and a hypothesis of a North African centre of diversity.Ecology and evolution · 2024Article
- Basic helix-loop-helix (bHLH) gene family in rye (Secale cereale L.): genome-wide identification, phylogeny, evolutionary expansion and expression analyses.BMC genomics · 2024Article
- Telomere-to-telomere pear (Horticulture research · 2023Article
- A sheep pangenome reveals the spectrum of structural variations and their effects on tail phenotypes.Genome research · 2023Article
- Extensive allele mining discovers novel genetic diversity in the loci controlling frost tolerance in barley.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Article
- Population Structure and Genetic Diversity of Two-Rowed Barley Accessions from Kazakhstan Based on SNP Genotyping Data.Plants (Basel, Switzerland) · 2021Article
- Extensive structural variation in the Bowman-Birk inhibitor family in common wheat (Triticum aestivum L.).BMC genomics · 2021Article
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Authors and funding
9 authors at 5 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Copy number variants (CNVs) are pervasive in several animal and plant genomes and contribute to shaping genetic diversity. In barley, there is evidence that changes in gene copy number underlie important agronomic traits. The recently released reference sequence of barley represents a valuable genomic resource for unveiling the incidence of CNVs that affect gene content and for identifying sequence features associated with CNV formation. Using exome sequencing and read count data, we detected 16 605 deletions and duplications that affect barley gene content by surveying a diverse panel of 172 cultivars, 171 landraces, 22 wild relatives and other 32 uncategorized domesticated accessions. The quest for segmental duplications (SDs) in the reference sequence revealed many low-copy repeats, most of which overlap predicted coding sequences. Statistical analyses revealed that the incidence of CNVs increases significantly in SD-rich regions, indicating that these sequence elements act as hot spots for the formation of CNVs. The present study delivers a comprehensive genome-wide study of CNVs affecting barley gene content and implicates SDs in the molecular mechanisms that lead to the formation of this class of CNVs.
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